Evidence map›Paper›PMID 28710774›Full record

ArticleProtein science : a publication of the Protein Society2018

UCSF ChimeraX: Meeting modern challenges in visualization and analysis.

Thomas D Goddard, Conrad C Huang, Elaine C Meng, Eric F Pettersen, Gregory S Couch, John H Morris, Thomas E Ferrin

Abstract read
In one paragraph

Article in Protein science : a publication of the Protein Society, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3,421 papers.

0numbers the graph read from it
0cells of the map it votes in
3,421citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

3,421 citing papers in PubMed.

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  12. Step-by-step maturation mechanism of the binary toxin pore revealed by cryo-EM analysis.Proceedings of the National Academy of Sciences of the United States of America · 2026
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  14. A miniature bioluminescent platform for imaging structured RNAs.bioRxiv : the preprint server for biology · 2026
    Article
  15. Article
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3,361 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors.

Thomas D GoddardDepartment of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, California, 94143.
Conrad C HuangDepartment of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, California, 94143.
Elaine C MengDepartment of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, California, 94143.
Eric F PettersenDepartment of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, California, 94143.
Gregory S CouchDepartment of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, California, 94143.
John H MorrisDepartment of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, California, 94143.
Thomas E FerrinDepartment of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, California, 94143.ORCID 0000-0001-6227-0637

Funding

Resource for Biocomputing Visualization and InformaticsP41GM103311 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 2012 to 2017
$8.2M
NIGMS NIH HHS P41 GM103311
6 · The paper itself

Abstract

UCSF ChimeraX is next-generation software for the visualization and analysis of molecular structures, density maps, 3D microscopy, and associated data. It addresses challenges in the size, scope, and disparate types of data attendant with cutting-edge experimental methods, while providing advanced options for high-quality rendering (interactive ambient occlusion, reliable molecular surface calculations, etc.) and professional approaches to software design and distribution. This article highlights some specific advances in the areas of visualization and usability, performance, and extensibility. ChimeraX is free for noncommercial use and is available from http://www.rbvi.ucsf.edu/chimerax/ for Windows, Mac, and Linux.

Indexed as

Imaging, Three-DimensionalSoftwareMolecular Structurebiomolecular visualization and analysisdensity mapsintegrative hybrid modelinginteractive molecular graphicslarge-scale datalight-sheet microscopystructural biologyvirtual reality

Identifiers

PMID28710774
PMCPMC5734306

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.